@jbrowse/plugin-alignments 1.7.3 → 1.7.4

package/dist/PileupRenderer/PileupRenderer.js

@@ -5,7 +5,7 @@ var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefau
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = void 0;
+exports.default = void 0;
 
 var _regenerator = _interopRequireDefault(require("@babel/runtime/regenerator"));
 
@@ -51,7 +51,7 @@ var _util2 = require("../util");
 
 var _PileupLayoutSession = require("./PileupLayoutSession");
 
-function _createForOfIteratorHelper(o, allowArrayLike) { var it = typeof Symbol !== "undefined" && o[Symbol.iterator] || o["@@iterator"]; if (!it) { if (Array.isArray(o) || (it = _unsupportedIterableToArray(o)) || allowArrayLike && o && typeof o.length === "number") { if (it) o = it; var i = 0; var F = function F() {}; return { s: F, n: function n() { if (i >= o.length) return { done: true }; return { done: false, value: o[i++] }; }, e: function e(_e) { throw _e; }, f: F }; } throw new TypeError("Invalid attempt to iterate non-iterable instance.\nIn order to be iterable, non-array objects must have a [Symbol.iterator]() method."); } var normalCompletion = true, didErr = false, err; return { s: function s() { it = it.call(o); }, n: function n() { var step = it.next(); normalCompletion = step.done; return step; }, e: function e(_e2) { didErr = true; err = _e2; }, f: function f() { try { if (!normalCompletion && it["return"] != null) it["return"](); } finally { if (didErr) throw err; } } }; }
+function _createForOfIteratorHelper(o, allowArrayLike) { var it = typeof Symbol !== "undefined" && o[Symbol.iterator] || o["@@iterator"]; if (!it) { if (Array.isArray(o) || (it = _unsupportedIterableToArray(o)) || allowArrayLike && o && typeof o.length === "number") { if (it) o = it; var i = 0; var F = function F() {}; return { s: F, n: function n() { if (i >= o.length) return { done: true }; return { done: false, value: o[i++] }; }, e: function e(_e) { throw _e; }, f: F }; } throw new TypeError("Invalid attempt to iterate non-iterable instance.\nIn order to be iterable, non-array objects must have a [Symbol.iterator]() method."); } var normalCompletion = true, didErr = false, err; return { s: function s() { it = it.call(o); }, n: function n() { var step = it.next(); normalCompletion = step.done; return step; }, e: function e(_e2) { didErr = true; err = _e2; }, f: function f() { try { if (!normalCompletion && it.return != null) it.return(); } finally { if (didErr) throw err; } } }; }
 
 function _unsupportedIterableToArray(o, minLen) { if (!o) return; if (typeof o === "string") return _arrayLikeToArray(o, minLen); var n = Object.prototype.toString.call(o).slice(8, -1); if (n === "Object" && o.constructor) n = o.constructor.name; if (n === "Map" || n === "Set") return Array.from(o); if (n === "Arguments" || /^(?:Ui|I)nt(?:8|16|32)(?:Clamped)?Array$/.test(n)) return _arrayLikeToArray(o, minLen); }
 
@@ -59,9 +59,9 @@ function _arrayLikeToArray(arr, len) { if (len == null || len > arr.length) len
 
 function ownKeys(object, enumerableOnly) { var keys = Object.keys(object); if (Object.getOwnPropertySymbols) { var symbols = Object.getOwnPropertySymbols(object); enumerableOnly && (symbols = symbols.filter(function (sym) { return Object.getOwnPropertyDescriptor(object, sym).enumerable; })), keys.push.apply(keys, symbols); } return keys; }
 
-function _objectSpread(target) { for (var i = 1; i < arguments.length; i++) { var source = null != arguments[i] ? arguments[i] : {}; i % 2 ? ownKeys(Object(source), !0).forEach(function (key) { (0, _defineProperty2["default"])(target, key, source[key]); }) : Object.getOwnPropertyDescriptors ? Object.defineProperties(target, Object.getOwnPropertyDescriptors(source)) : ownKeys(Object(source)).forEach(function (key) { Object.defineProperty(target, key, Object.getOwnPropertyDescriptor(source, key)); }); } return target; }
+function _objectSpread(target) { for (var i = 1; i < arguments.length; i++) { var source = null != arguments[i] ? arguments[i] : {}; i % 2 ? ownKeys(Object(source), !0).forEach(function (key) { (0, _defineProperty2.default)(target, key, source[key]); }) : Object.getOwnPropertyDescriptors ? Object.defineProperties(target, Object.getOwnPropertyDescriptors(source)) : ownKeys(Object(source)).forEach(function (key) { Object.defineProperty(target, key, Object.getOwnPropertyDescriptor(source, key)); }); } return target; }
 
-function _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2["default"])(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2["default"])(this).constructor; result = Reflect.construct(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2["default"])(this, result); }; }
+function _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2.default)(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2.default)(this).constructor; result = Reflect.construct(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2.default)(this, result); }; }
 
 function _isNativeReflectConstruct() { if (typeof Reflect === "undefined" || !Reflect.construct) return false; if (Reflect.construct.sham) return false; if (typeof Proxy === "function") return true; try { Boolean.prototype.valueOf.call(Reflect.construct(Boolean, [], function () {})); return true; } catch (e) { return false; } }
 
@@ -78,7 +78,7 @@ function getColorBaseMap(theme) {
 
 function getContrastBaseMap(theme) {
   return Object.fromEntries(Object.entries(getColorBaseMap(theme)).map(function (_ref) {
-    var _ref2 = (0, _slicedToArray2["default"])(_ref, 2),
+    var _ref2 = (0, _slicedToArray2.default)(_ref, 2),
         key = _ref2[0],
         value = _ref2[1];
 
@@ -110,25 +110,25 @@ function shouldDrawMismatches(type) {
 }
 
 var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
-  (0, _inherits2["default"])(PileupRenderer, _BoxRendererType);
+  (0, _inherits2.default)(PileupRenderer, _BoxRendererType);
 
   var _super = _createSuper(PileupRenderer);
 
   function PileupRenderer() {
     var _this;
 
-    (0, _classCallCheck2["default"])(this, PileupRenderer);
+    (0, _classCallCheck2.default)(this, PileupRenderer);
 
     for (var _len = arguments.length, args = new Array(_len), _key = 0; _key < _len; _key++) {
       args[_key] = arguments[_key];
     }
 
     _this = _super.call.apply(_super, [this].concat(args));
-    (0, _defineProperty2["default"])((0, _assertThisInitialized2["default"])(_this), "supportsSVG", true);
+    (0, _defineProperty2.default)((0, _assertThisInitialized2.default)(_this), "supportsSVG", true);
     return _this;
   }
 
-  (0, _createClass2["default"])(PileupRenderer, [{
+  (0, _createClass2.default)(PileupRenderer, [{
     key: "getCharWidthHeight",
     value: // get width and height of chars the height is an approximation: width
     // letter M is approximately the height
@@ -173,7 +173,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
       }
 
       var _bpSpanPx = (0, _util.bpSpanPx)(feature.get('start') - expansionBefore, feature.get('end') + expansionAfter, region, bpPerPx),
-          _bpSpanPx2 = (0, _slicedToArray2["default"])(_bpSpanPx, 2),
+          _bpSpanPx2 = (0, _slicedToArray2.default)(_bpSpanPx, 2),
           leftPx = _bpSpanPx2[0],
           rightPx = _bpSpanPx2[1];
 
@@ -302,7 +302,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
             ctx.fillStyle = colorForBase[letter];
 
             var _bpSpanPx3 = (0, _util.bpSpanPx)(start + roffset + m, start + roffset + m + 1, region, bpPerPx),
-                _bpSpanPx4 = (0, _slicedToArray2["default"])(_bpSpanPx3, 1),
+                _bpSpanPx4 = (0, _slicedToArray2.default)(_bpSpanPx3, 1),
                 leftPx = _bpSpanPx4[0];
 
             ctx.fillRect(leftPx, topPx, widthPx + 0.5, heightPx);
@@ -350,7 +350,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
             ctx.fillStyle = "hsl(".concat(score === 255 ? 150 : score * 1.5, ",55%,50%)");
 
             var _bpSpanPx5 = (0, _util.bpSpanPx)(start + roffset + m, start + roffset + m + 1, region, bpPerPx),
-                _bpSpanPx6 = (0, _slicedToArray2["default"])(_bpSpanPx5, 1),
+                _bpSpanPx6 = (0, _slicedToArray2.default)(_bpSpanPx5, 1),
                 leftPx = _bpSpanPx6[0];
 
             ctx.fillRect(leftPx, topPx, width + 0.5, heightPx);
@@ -404,7 +404,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
             type = _modifications$i.type,
             positions = _modifications$i.positions;
         var col = modificationTagMap[type] || 'black';
-        var base = (0, _color["default"])(col);
+        var base = (0, _color.default)(col);
 
         var _iterator = _createForOfIteratorHelper((0, _MismatchParser.getNextRefPos)(cigarOps, positions)),
             _step;
@@ -415,7 +415,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
 
             if (readPos >= 0 && start + readPos < end) {
               var _bpSpanPx7 = (0, _util.bpSpanPx)(start + readPos, start + readPos + 1, region, bpPerPx),
-                  _bpSpanPx8 = (0, _slicedToArray2["default"])(_bpSpanPx7, 2),
+                  _bpSpanPx8 = (0, _slicedToArray2.default)(_bpSpanPx7, 2),
                   leftPx = _bpSpanPx8[0],
                   rightPx = _bpSpanPx8[1]; // give it a little boost of 0.1 to not make them fully
               // invisible to avoid confusion
@@ -501,7 +501,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
               var s = rstart + _i;
 
               var _bpSpanPx9 = (0, _util.bpSpanPx)(s, s + 2, region, bpPerPx),
-                  _bpSpanPx10 = (0, _slicedToArray2["default"])(_bpSpanPx9, 2),
+                  _bpSpanPx10 = (0, _slicedToArray2.default)(_bpSpanPx9, 2),
                   leftPx = _bpSpanPx10[0],
                   rightPx = _bpSpanPx10[1];
 
@@ -520,7 +520,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
               var _s = rstart + _i;
 
               var _bpSpanPx11 = (0, _util.bpSpanPx)(_s, _s + 1, region, bpPerPx),
-                  _bpSpanPx12 = (0, _slicedToArray2["default"])(_bpSpanPx11, 2),
+                  _bpSpanPx12 = (0, _slicedToArray2.default)(_bpSpanPx11, 2),
                   _leftPx = _bpSpanPx12[0],
                   _rightPx = _bpSpanPx12[1];
 
@@ -533,7 +533,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
               ctx.fillRect(_leftPx, topPx, _rightPx - _leftPx + 0.5, heightPx);
 
               var _bpSpanPx13 = (0, _util.bpSpanPx)(_s + 1, _s + 2, region, bpPerPx),
-                  _bpSpanPx14 = (0, _slicedToArray2["default"])(_bpSpanPx13, 2),
+                  _bpSpanPx14 = (0, _slicedToArray2.default)(_bpSpanPx13, 2),
                   leftPx2 = _bpSpanPx14[0],
                   rightPx2 = _bpSpanPx14[1];
 
@@ -558,11 +558,11 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
           topPx = feat.topPx,
           feature = feat.feature;
 
-      var _regions = (0, _slicedToArray2["default"])(regions, 1),
+      var _regions = (0, _slicedToArray2.default)(regions, 1),
           region = _regions[0];
 
       var _bpSpanPx15 = (0, _util.bpSpanPx)(feature.get('start'), feature.get('end'), region, bpPerPx),
-          _bpSpanPx16 = (0, _slicedToArray2["default"])(_bpSpanPx15, 2),
+          _bpSpanPx16 = (0, _slicedToArray2.default)(_bpSpanPx15, 2),
           leftPx = _bpSpanPx16[0],
           rightPx = _bpSpanPx16[1];
 
@@ -746,7 +746,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
           topPx = feat.topPx,
           feature = feat.feature;
 
-      var _regions2 = (0, _slicedToArray2["default"])(regions, 1),
+      var _regions2 = (0, _slicedToArray2.default)(regions, 1),
           region = _regions2[0];
 
       var start = feature.get('start');
@@ -759,7 +759,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
         var color = baseColor;
 
         if (mismatchAlpha && mismatch.qual !== undefined) {
-          color = (0, _color["default"])(baseColor).alpha(Math.min(1, mismatch.qual / 50)).hsl().string();
+          color = (0, _color.default)(baseColor).alpha(Math.min(1, mismatch.qual / 50)).hsl().string();
         }
 
         return color;
@@ -777,7 +777,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
         var mbase = mismatch.base;
 
         var _bpSpanPx17 = (0, _util.bpSpanPx)(mstart, mstart + mlen, region, bpPerPx),
-            _bpSpanPx18 = (0, _slicedToArray2["default"])(_bpSpanPx17, 2),
+            _bpSpanPx18 = (0, _slicedToArray2.default)(_bpSpanPx17, 2),
             leftPx = _bpSpanPx18[0],
             rightPx = _bpSpanPx18[1];
 
@@ -856,7 +856,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
           var _mlen = _mismatch.length;
 
           var _bpSpanPx19 = (0, _util.bpSpanPx)(_mstart, _mstart + _mlen, region, bpPerPx),
-              _bpSpanPx20 = (0, _slicedToArray2["default"])(_bpSpanPx19, 1),
+              _bpSpanPx20 = (0, _slicedToArray2.default)(_bpSpanPx19, 1),
               _leftPx2 = _bpSpanPx20[0];
 
           var _len2 = +_mismatch.base || _mismatch.length;
@@ -892,7 +892,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
       var regions = props.regions,
           bpPerPx = props.bpPerPx;
 
-      var _regions3 = (0, _slicedToArray2["default"])(regions, 1),
+      var _regions3 = (0, _slicedToArray2.default)(regions, 1),
           region = _regions3[0];
 
       var minFeatWidth = (0, _configuration.readConfObject)(config, 'minSubfeatureWidth');
@@ -929,7 +929,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
             }
 
             var _bpSpanPx21 = (0, _util.bpSpanPx)(softClipStart + k, softClipStart + k + 1, region, bpPerPx),
-                _bpSpanPx22 = (0, _slicedToArray2["default"])(_bpSpanPx21, 2),
+                _bpSpanPx22 = (0, _slicedToArray2.default)(_bpSpanPx21, 2),
                 softClipLeftPx = _bpSpanPx22[0],
                 softClipRightPx = _bpSpanPx22[1];
 
@@ -951,12 +951,12 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
   }, {
     key: "makeImageData",
     value: function () {
-      var _makeImageData = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee(ctx, layoutRecords, props) {
+      var _makeImageData = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee(ctx, layoutRecords, props) {
         var _this2 = this;
 
         var layout, config, showSoftClip, colorBy, configTheme, mismatchAlpha, minSubfeatureWidth, insertScale, defaultColor, theme, colorForBase, contrastForBase, _this$getCharWidthHei2, charWidth, charHeight;
 
-        return _regenerator["default"].wrap(function _callee$(_context) {
+        return _regenerator.default.wrap(function _callee$(_context) {
           while (1) {
             switch (_context.prev = _context.next) {
               case 0:
@@ -1046,7 +1046,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
           showSoftClip = props.showSoftClip,
           regions = props.regions;
 
-      var _regions4 = (0, _slicedToArray2["default"])(regions, 1),
+      var _regions4 = (0, _slicedToArray2.default)(regions, 1),
           region = _regions4[0];
 
       if (!layout) {
@@ -1076,10 +1076,10 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
   }, {
     key: "fetchSequence",
     value: function () {
-      var _fetchSequence2 = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee2(renderProps) {
+      var _fetchSequence2 = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee2(renderProps) {
         var sessionId, regions, adapterConfig, sequenceAdapter, _yield$getAdapter, dataAdapter, _regions5, region;
 
-        return _regenerator["default"].wrap(function _callee2$(_context2) {
+        return _regenerator.default.wrap(function _callee2$(_context2) {
           while (1) {
             switch (_context2.prev = _context2.next) {
               case 0:
@@ -1100,7 +1100,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
               case 6:
                 _yield$getAdapter = _context2.sent;
                 dataAdapter = _yield$getAdapter.dataAdapter;
-                _regions5 = (0, _slicedToArray2["default"])(regions, 1), region = _regions5[0];
+                _regions5 = (0, _slicedToArray2.default)(regions, 1), region = _regions5[0];
                 return _context2.abrupt("return", (0, _util2.fetchSequence)(region, dataAdapter));
 
               case 10:
@@ -1120,13 +1120,13 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
   }, {
     key: "render",
     value: function () {
-      var _render = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee3(renderProps) {
+      var _render = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee3(renderProps) {
         var _renderProps$colorBy,
             _this4 = this;
 
         var features, layout, regions, bpPerPx, layoutRecords, _regions6, region, regionSequence, end, start, width, height, res, results;
 
-        return _regenerator["default"].wrap(function _callee3$(_context3) {
+        return _regenerator.default.wrap(function _callee3$(_context3) {
           while (1) {
             switch (_context3.prev = _context3.next) {
               case 0:
@@ -1141,7 +1141,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
                   features: features,
                   layout: layout
                 }));
-                _regions6 = (0, _slicedToArray2["default"])(regions, 1), region = _regions6[0]; // only need reference sequence if there are features and only for some
+                _regions6 = (0, _slicedToArray2.default)(regions, 1), region = _regions6[0]; // only need reference sequence if there are features and only for some
                 // cases
 
                 if (!(features.size && (0, _util2.shouldFetchReferenceSequence)((_renderProps$colorBy = renderProps.colorBy) === null || _renderProps$colorBy === void 0 ? void 0 : _renderProps$colorBy.type))) {
@@ -1177,7 +1177,7 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
               case 20:
                 res = _context3.sent;
                 _context3.next = 23;
-                return (0, _get2["default"])((0, _getPrototypeOf2["default"])(PileupRenderer.prototype), "render", this).call(this, _objectSpread(_objectSpread(_objectSpread({}, renderProps), res), {}, {
+                return (0, _get2.default)((0, _getPrototypeOf2.default)(PileupRenderer.prototype), "render", this).call(this, _objectSpread(_objectSpread(_objectSpread({}, renderProps), res), {}, {
                   features: features,
                   layout: layout,
                   height: height,
@@ -1215,6 +1215,6 @@ var PileupRenderer = /*#__PURE__*/function (_BoxRendererType) {
     }
   }]);
   return PileupRenderer;
-}(_BoxRendererType2["default"]);
+}(_BoxRendererType2.default);
 
-exports["default"] = PileupRenderer;
+exports.default = PileupRenderer;

package/dist/PileupRenderer/components/PileupRendering.js

@@ -7,7 +7,7 @@ var _typeof = require("@babel/runtime/helpers/typeof");
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = void 0;
+exports.default = void 0;
 
 var _extends2 = _interopRequireDefault(require("@babel/runtime/helpers/extends"));
 
@@ -23,7 +23,7 @@ var _react = _interopRequireWildcard(require("react"));
 
 function _getRequireWildcardCache(nodeInterop) { if (typeof WeakMap !== "function") return null; var cacheBabelInterop = new WeakMap(); var cacheNodeInterop = new WeakMap(); return (_getRequireWildcardCache = function _getRequireWildcardCache(nodeInterop) { return nodeInterop ? cacheNodeInterop : cacheBabelInterop; })(nodeInterop); }
 
-function _interopRequireWildcard(obj, nodeInterop) { if (!nodeInterop && obj && obj.__esModule) { return obj; } if (obj === null || _typeof(obj) !== "object" && typeof obj !== "function") { return { "default": obj }; } var cache = _getRequireWildcardCache(nodeInterop); if (cache && cache.has(obj)) { return cache.get(obj); } var newObj = {}; var hasPropertyDescriptor = Object.defineProperty && Object.getOwnPropertyDescriptor; for (var key in obj) { if (key !== "default" && Object.prototype.hasOwnProperty.call(obj, key)) { var desc = hasPropertyDescriptor ? Object.getOwnPropertyDescriptor(obj, key) : null; if (desc && (desc.get || desc.set)) { Object.defineProperty(newObj, key, desc); } else { newObj[key] = obj[key]; } } } newObj["default"] = obj; if (cache) { cache.set(obj, newObj); } return newObj; }
+function _interopRequireWildcard(obj, nodeInterop) { if (!nodeInterop && obj && obj.__esModule) { return obj; } if (obj === null || _typeof(obj) !== "object" && typeof obj !== "function") { return { default: obj }; } var cache = _getRequireWildcardCache(nodeInterop); if (cache && cache.has(obj)) { return cache.get(obj); } var newObj = {}; var hasPropertyDescriptor = Object.defineProperty && Object.getOwnPropertyDescriptor; for (var key in obj) { if (key !== "default" && Object.prototype.hasOwnProperty.call(obj, key)) { var desc = hasPropertyDescriptor ? Object.getOwnPropertyDescriptor(obj, key) : null; if (desc && (desc.get || desc.set)) { Object.defineProperty(newObj, key, desc); } else { newObj[key] = obj[key]; } } } newObj.default = obj; if (cache) { cache.set(obj, newObj); } return newObj; }
 
 // used so that user can click-away-from-feature below the laid out features
 // (issue #1248)
@@ -43,18 +43,18 @@ function PileupRendering(props) {
       featureIdUnderMouse = displayModel.featureIdUnderMouse,
       contextMenuFeature = displayModel.contextMenuFeature;
 
-  var _regions = (0, _slicedToArray2["default"])(regions, 1),
+  var _regions = (0, _slicedToArray2.default)(regions, 1),
       region = _regions[0];
 
   var highlightOverlayCanvas = (0, _react.useRef)(null);
 
   var _useState = (0, _react.useState)(false),
-      _useState2 = (0, _slicedToArray2["default"])(_useState, 2),
+      _useState2 = (0, _slicedToArray2.default)(_useState, 2),
       mouseIsDown = _useState2[0],
       setMouseIsDown = _useState2[1];
 
   var _useState3 = (0, _react.useState)(false),
-      _useState4 = (0, _slicedToArray2["default"])(_useState3, 2),
+      _useState4 = (0, _slicedToArray2.default)(_useState3, 2),
       movedDuringLastMouseDown = _useState4[0],
       setMovedDuringLastMouseDown = _useState4[1];
 
@@ -77,14 +77,14 @@ function PileupRendering(props) {
     var selectedRect = selectedFeatureId ? (_displayModel$getFeat = displayModel.getFeatureByID) === null || _displayModel$getFeat === void 0 ? void 0 : _displayModel$getFeat.call(displayModel, blockKey, selectedFeatureId) : undefined;
 
     if (selectedRect) {
-      var _selectedRect = (0, _slicedToArray2["default"])(selectedRect, 4),
+      var _selectedRect = (0, _slicedToArray2.default)(selectedRect, 4),
           leftBp = _selectedRect[0],
           topPx = _selectedRect[1],
           rightBp = _selectedRect[2],
           bottomPx = _selectedRect[3];
 
       var _bpSpanPx = (0, _util.bpSpanPx)(leftBp, rightBp, region, bpPerPx),
-          _bpSpanPx2 = (0, _slicedToArray2["default"])(_bpSpanPx, 2),
+          _bpSpanPx2 = (0, _slicedToArray2.default)(_bpSpanPx, 2),
           leftPx = _bpSpanPx2[0],
           rightPx = _bpSpanPx2[1];
 
@@ -103,14 +103,14 @@ function PileupRendering(props) {
     var highlightedRect = highlightedFeature ? (_displayModel$getFeat2 = displayModel.getFeatureByID) === null || _displayModel$getFeat2 === void 0 ? void 0 : _displayModel$getFeat2.call(displayModel, blockKey, highlightedFeature) : undefined;
 
     if (highlightedRect) {
-      var _highlightedRect = (0, _slicedToArray2["default"])(highlightedRect, 4),
+      var _highlightedRect = (0, _slicedToArray2.default)(highlightedRect, 4),
           _leftBp = _highlightedRect[0],
           _topPx = _highlightedRect[1],
           _rightBp = _highlightedRect[2],
           _bottomPx = _highlightedRect[3];
 
       var _bpSpanPx3 = (0, _util.bpSpanPx)(_leftBp, _rightBp, region, bpPerPx),
-          _bpSpanPx4 = (0, _slicedToArray2["default"])(_bpSpanPx3, 2),
+          _bpSpanPx4 = (0, _slicedToArray2.default)(_bpSpanPx3, 2),
           _leftPx = _bpSpanPx4[0],
           _rightPx = _bpSpanPx4[1];
 
@@ -208,7 +208,7 @@ function PileupRendering(props) {
 
   var canvasWidth = Math.ceil(width); // need to call this in render so we get the right observer behavior
 
-  return /*#__PURE__*/_react["default"].createElement("div", {
+  return /*#__PURE__*/_react.default.createElement("div", {
     className: "PileupRendering",
     "data-testid": "pileup-".concat(sortedBy || colorBy ? "".concat((sortedBy === null || sortedBy === void 0 ? void 0 : sortedBy.type) || '').concat((colorBy === null || colorBy === void 0 ? void 0 : colorBy.type) || '').concat((colorBy === null || colorBy === void 0 ? void 0 : colorBy.tag) || '') : 'normal'),
     style: {
@@ -216,13 +216,13 @@ function PileupRendering(props) {
       width: canvasWidth,
       height: height
     }
-  }, /*#__PURE__*/_react["default"].createElement(_ui.PrerenderedCanvas, (0, _extends2["default"])({}, props, {
+  }, /*#__PURE__*/_react.default.createElement(_ui.PrerenderedCanvas, (0, _extends2.default)({}, props, {
     style: {
       position: 'absolute',
       left: 0,
       top: 0
     }
-  })), /*#__PURE__*/_react["default"].createElement("canvas", {
+  })), /*#__PURE__*/_react.default.createElement("canvas", {
     "data-testid": "pileup_overlay_canvas",
     width: canvasWidth,
     height: height + canvasPadding,
@@ -267,4 +267,4 @@ function PileupRendering(props) {
 
 var _default = (0, _mobxReact.observer)(PileupRendering);
 
-exports["default"] = _default;
+exports.default = _default;

package/dist/PileupRenderer/components/PileupRendering.test.js

@@ -12,7 +12,7 @@ var _PileupRendering = _interopRequireDefault(require("./PileupRendering"));
 
 // these tests do very little, let's try to expand them at some point
 test('one', function () {
-  var _render = (0, _react2.render)( /*#__PURE__*/_react["default"].createElement(_PileupRendering["default"], {
+  var _render = (0, _react2.render)( /*#__PURE__*/_react.default.createElement(_PileupRendering.default, {
     width: 500,
     height: 500,
     regions: [{
@@ -20,7 +20,7 @@ test('one', function () {
       start: 1,
       end: 3
     }],
-    layout: new _PrecomputedLayout["default"]({
+    layout: new _PrecomputedLayout.default({
       rectangles: {},
       totalHeight: 20
     }),

package/dist/PileupRenderer/configSchema.js

@@ -3,7 +3,7 @@
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = void 0;
+exports.default = void 0;
 
 var _configuration = require("@jbrowse/core/configuration");
 
@@ -69,4 +69,4 @@ var _default = (0, _configuration.ConfigurationSchema)('PileupRenderer', {
   explicitlyTyped: true
 });
 
-exports["default"] = _default;
+exports.default = _default;

package/dist/PileupRenderer/index.js

@@ -5,7 +5,7 @@ var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefau
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = register;
+exports.default = register;
 
 var _PileupRenderer = _interopRequireDefault(require("./PileupRenderer"));
 
@@ -15,10 +15,10 @@ var _configSchema = _interopRequireDefault(require("./configSchema"));
 
 function register(pluginManager) {
   pluginManager.addRendererType(function () {
-    return new _PileupRenderer["default"]({
+    return new _PileupRenderer.default({
       name: 'PileupRenderer',
-      ReactComponent: _PileupRendering["default"],
-      configSchema: _configSchema["default"],
+      ReactComponent: _PileupRendering.default,
+      configSchema: _configSchema.default,
       pluginManager: pluginManager
     });
   });

package/dist/SNPCoverageAdapter/SNPCoverageAdapter.js

@@ -5,7 +5,7 @@ var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefau
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = exports.capabilities = void 0;
+exports.default = exports.capabilities = void 0;
 
 var _regenerator = _interopRequireDefault(require("@babel/runtime/regenerator"));
 
@@ -35,13 +35,13 @@ var _util = require("../util");
 
 var _MismatchParser = require("../BamAdapter/MismatchParser");
 
-function _createForOfIteratorHelper(o, allowArrayLike) { var it = typeof Symbol !== "undefined" && o[Symbol.iterator] || o["@@iterator"]; if (!it) { if (Array.isArray(o) || (it = _unsupportedIterableToArray(o)) || allowArrayLike && o && typeof o.length === "number") { if (it) o = it; var i = 0; var F = function F() {}; return { s: F, n: function n() { if (i >= o.length) return { done: true }; return { done: false, value: o[i++] }; }, e: function e(_e) { throw _e; }, f: F }; } throw new TypeError("Invalid attempt to iterate non-iterable instance.\nIn order to be iterable, non-array objects must have a [Symbol.iterator]() method."); } var normalCompletion = true, didErr = false, err; return { s: function s() { it = it.call(o); }, n: function n() { var step = it.next(); normalCompletion = step.done; return step; }, e: function e(_e2) { didErr = true; err = _e2; }, f: function f() { try { if (!normalCompletion && it["return"] != null) it["return"](); } finally { if (didErr) throw err; } } }; }
+function _createForOfIteratorHelper(o, allowArrayLike) { var it = typeof Symbol !== "undefined" && o[Symbol.iterator] || o["@@iterator"]; if (!it) { if (Array.isArray(o) || (it = _unsupportedIterableToArray(o)) || allowArrayLike && o && typeof o.length === "number") { if (it) o = it; var i = 0; var F = function F() {}; return { s: F, n: function n() { if (i >= o.length) return { done: true }; return { done: false, value: o[i++] }; }, e: function e(_e) { throw _e; }, f: F }; } throw new TypeError("Invalid attempt to iterate non-iterable instance.\nIn order to be iterable, non-array objects must have a [Symbol.iterator]() method."); } var normalCompletion = true, didErr = false, err; return { s: function s() { it = it.call(o); }, n: function n() { var step = it.next(); normalCompletion = step.done; return step; }, e: function e(_e2) { didErr = true; err = _e2; }, f: function f() { try { if (!normalCompletion && it.return != null) it.return(); } finally { if (didErr) throw err; } } }; }
 
 function _unsupportedIterableToArray(o, minLen) { if (!o) return; if (typeof o === "string") return _arrayLikeToArray(o, minLen); var n = Object.prototype.toString.call(o).slice(8, -1); if (n === "Object" && o.constructor) n = o.constructor.name; if (n === "Map" || n === "Set") return Array.from(o); if (n === "Arguments" || /^(?:Ui|I)nt(?:8|16|32)(?:Clamped)?Array$/.test(n)) return _arrayLikeToArray(o, minLen); }
 
 function _arrayLikeToArray(arr, len) { if (len == null || len > arr.length) len = arr.length; for (var i = 0, arr2 = new Array(len); i < len; i++) { arr2[i] = arr[i]; } return arr2; }
 
-function _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2["default"])(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2["default"])(this).constructor; result = Reflect.construct(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2["default"])(this, result); }; }
+function _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2.default)(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2.default)(this).constructor; result = Reflect.construct(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2.default)(this, result); }; }
 
 function _isNativeReflectConstruct() { if (typeof Reflect === "undefined" || !Reflect.construct) return false; if (Reflect.construct.sham) return false; if (typeof Proxy === "function") return true; try { Boolean.prototype.valueOf.call(Reflect.construct(Boolean, [], function () {})); return true; } catch (e) { return false; } }
 
@@ -90,23 +90,23 @@ function dec(bin, strand, type, field) {
 }
 
 var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
-  (0, _inherits2["default"])(SNPCoverageAdapter, _BaseFeatureDataAdapt);
+  (0, _inherits2.default)(SNPCoverageAdapter, _BaseFeatureDataAdapt);
 
   var _super = _createSuper(SNPCoverageAdapter);
 
   function SNPCoverageAdapter() {
-    (0, _classCallCheck2["default"])(this, SNPCoverageAdapter);
+    (0, _classCallCheck2.default)(this, SNPCoverageAdapter);
     return _super.apply(this, arguments);
   }
 
-  (0, _createClass2["default"])(SNPCoverageAdapter, [{
+  (0, _createClass2.default)(SNPCoverageAdapter, [{
     key: "configure",
     value: function () {
-      var _configure = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee() {
+      var _configure = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee() {
         var _this$getSubAdapter, _this$getSubAdapter2;
 
         var subadapterConfig, sequenceConf, dataAdapter, sequenceAdapter;
-        return _regenerator["default"].wrap(function _callee$(_context) {
+        return _regenerator.default.wrap(function _callee$(_context) {
           while (1) {
             switch (_context.prev = _context.next) {
               case 0:
@@ -167,10 +167,10 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
   }, {
     key: "fetchSequence",
     value: function () {
-      var _fetchSequence2 = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee2(region) {
+      var _fetchSequence2 = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee2(region) {
         var _yield$this$configure, sequenceAdapter;
 
-        return _regenerator["default"].wrap(function _callee2$(_context2) {
+        return _regenerator.default.wrap(function _callee2$(_context2) {
           while (1) {
             switch (_context2.prev = _context2.next) {
               case 0:
@@ -212,10 +212,10 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
 
       var opts = arguments.length > 1 && arguments[1] !== undefined ? arguments[1] : {};
       return (0, _rxjs.ObservableCreate)( /*#__PURE__*/function () {
-        var _ref = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee3(observer) {
+        var _ref = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee3(observer) {
           var _yield$_this$configur, subadapter, feats, _yield$_this$generate, bins, skipmap;
 
-          return _regenerator["default"].wrap(function _callee3$(_context3) {
+          return _regenerator.default.wrap(function _callee3$(_context3) {
             while (1) {
               switch (_context3.prev = _context3.next) {
                 case 0:
@@ -238,7 +238,7 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
                   bins = _yield$_this$generate.bins;
                   skipmap = _yield$_this$generate.skipmap;
                   bins.forEach(function (bin, index) {
-                    observer.next(new _simpleFeature["default"]({
+                    observer.next(new _simpleFeature.default({
                       id: "".concat(_this.id, "-").concat(region.start + index),
                       data: {
                         score: bin.total,
@@ -251,11 +251,11 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
                   }); // make fake features from the coverage
 
                   Object.entries(skipmap).forEach(function (_ref2) {
-                    var _ref3 = (0, _slicedToArray2["default"])(_ref2, 2),
+                    var _ref3 = (0, _slicedToArray2.default)(_ref2, 2),
                         key = _ref3[0],
                         skip = _ref3[1];
 
-                    observer.next(new _simpleFeature["default"]({
+                    observer.next(new _simpleFeature.default({
                       id: key,
                       data: {
                         type: 'skip',
@@ -285,10 +285,10 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
   }, {
     key: "estimateRegionsStats",
     value: function () {
-      var _estimateRegionsStats = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee4(regions, opts) {
+      var _estimateRegionsStats = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee4(regions, opts) {
         var _yield$this$configure2, subadapter;
 
-        return _regenerator["default"].wrap(function _callee4$(_context4) {
+        return _regenerator.default.wrap(function _callee4$(_context4) {
           while (1) {
             switch (_context4.prev = _context4.next) {
               case 0:
@@ -317,13 +317,13 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
   }, {
     key: "getRefNames",
     value: function () {
-      var _getRefNames = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee5() {
+      var _getRefNames = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee5() {
         var opts,
             _yield$this$configure3,
             subadapter,
             _args5 = arguments;
 
-        return _regenerator["default"].wrap(function _callee5$(_context5) {
+        return _regenerator.default.wrap(function _callee5$(_context5) {
           while (1) {
             switch (_context5.prev = _context5.next) {
               case 0:
@@ -358,12 +358,12 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
   }, {
     key: "generateCoverageBins",
     value: function () {
-      var _generateCoverageBins = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee6(features, region, opts) {
+      var _generateCoverageBins = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee6(features, region, opts) {
         var _opts$colorBy;
 
         var colorBy, binMax, skipmap, regionSeq, bins, _loop, i;
 
-        return _regenerator["default"].wrap(function _callee6$(_context6) {
+        return _regenerator.default.wrap(function _callee6$(_context6) {
           while (1) {
             switch (_context6.prev = _context6.next) {
               case 0:
@@ -601,6 +601,6 @@ var SNPCoverageAdapter = /*#__PURE__*/function (_BaseFeatureDataAdapt) {
   return SNPCoverageAdapter;
 }(_BaseAdapter.BaseFeatureDataAdapter);
 
-exports["default"] = SNPCoverageAdapter;
+exports.default = SNPCoverageAdapter;
 var capabilities = SNPCoverageAdapter.capabilities;
 exports.capabilities = capabilities;

package/dist/SNPCoverageAdapter/configSchema.js

@@ -3,7 +3,7 @@
 Object.defineProperty(exports, "__esModule", {
   value: true
 });
-exports["default"] = void 0;
+exports.default = void 0;
 
 var _configuration = require("@jbrowse/core/configuration");
 
@@ -19,4 +19,4 @@ var _default = function _default(pluginManager) {
   });
 };
 
-exports["default"] = _default;
+exports.default = _default;